# List of top-scoring protein chains for t2k-100-30-near-backbone-11 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1hx6A 394 1.22e-01 1cjdA b.121.2.1 58995 b.121.2.1 58996 1hb5A 394 1.24e-01 i.6.1.1 65752 1cjdA 394 1.95e-01 1cjdA b.121.2.1 58963 b.121.2.1 58964 1bbhA 131 3.95e-01 1bbhA a.24.3.2 16546 1s1dA 331 1.17e+00 unknown_sccs -4566 1f8yA 157 1.36e+00 1f8xA c.23.14.1 31395 1f8xA 157 1.44e+00 1f8xA c.23.14.1 31397 1evsA 187 1.66e+00 1evsA a.26.1.1 16845 1qtnA 164 2.42e+00 1pauA c.17.1.1 30999 1kq5A 159 2.59e+00 b.80.5.1 68795 1mejA 223 2.68e+00 c.65.1.1 79029 1rifA 282 2.69e+00 unknown_sccs -7265 1rypH 205 3.20e+00 d.153.1.4 41876 1k4zA 159 3.46e+00 b.80.5.1 72070 1oeyA 83 4.28e+00 d.15.2.2 -9162 1o94A 729 4.53e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1djnA 729 4.63e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 2tmdA 729 4.67e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1trrA 107 6.00e+00 1jhgA a.4.12.1 19017 2gar 212 6.06e+00 2gar c.65.1.1 34161 1f6yA 262 6.55e+00 1f6yA c.1.21.2 29673 1k99A 99 6.60e+00 a.21.1.1 68341 1pnkB 557 7.13e+00 1ajqB 1gk9B 557 7.13e+00 1ajqB 557 7.27e+00 1ajqB 1gkfB 557 7.45e+00 1jj2R 84 8.16e+00 1ffkP d.12.1.1 63103 1s72S 85 8.27e+00 1hce 118 8.95e+00 1hce b.42.5.2 25625 1vdwA 254 9.65e+00 e.7.1.1 -11868 1a2s 89 1.08e+01 1ctj a.3.1.1 15800 1e3aB 560 1.09e+01 1ajqB 1meoA 209 1.24e+01 c.65.1.1 79035 1o66A 275 1.27e+01 c.1.12.8 -5590 1m3uA 264 1.28e+01 c.1.12.8 84784 1hcd 118 1.29e+01 1hce b.42.5.2 25624 1culA 217 1.36e+01 1azsA d.58.29.1 39417 1gm7B 557 1.41e+01 1ffkW 73 1.44e+01 1ffkW g.41.8.1 45315 1gm9B 557 1.47e+01 2wrpR 107 1.48e+01 1jhgA a.4.12.1 19010 1nwbA 124 1.49e+01 b.124.1.1 86296 1aurA 218 1.49e+01 1auoA c.69.1.14 34718 1jhgA 101 1.51e+01 1jhgA a.4.12.1 19009 1j3wA 163 1.53e+01 unknown_sccs -10870 2lgsA 468 1.54e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 5ukdA 194 1.56e+01 1zin c.37.1.1 31851 1cjtA 217 1.59e+01 1azsA d.58.29.1 39419 1thx 115 1.61e+01 1thx c.47.1.1 32732 1s72P 149 1.66e+01 1ukmB 128 1.72e+01 d.169.1.1 -11625 1lgr 468 1.72e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 2glsA 470 1.78e+01 1lgr d.15.9.1 37851 d.128.1.1 41181 1jj2O 148 1.89e+01 1ffkM a.94.1.1 63100 1q8iA 783 1.96e+01 c.55.3.5 -7635 e.8.1.1 -11885 1azsA 220 2.22e+01 1azsA d.58.29.1 39416 1rxwA 336 2.29e+01 a.60.7.1 -1041 c.120.1.2 -6680 2dabA 282 2.36e+01 1daaA e.17.1.1 43274 1puzA 82 2.43e+01 3icb 75 2.50e+01 4icb a.39.1.1 17147 1auoA 218 2.56e+01 1auoA c.69.1.14 34716 1garA 212 2.59e+01 2gar c.65.1.1 34162 1h4rA 314 2.59e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1jj2F 119 2.67e+01 1ffkE d.79.3.1 63091 4icb 76 2.69e+01 4icb a.39.1.1 17145 1f5mA 180 2.73e+01 1f5mB d.110.2.1 40895 1cjbA 231 2.74e+01 1qk3A c.61.1.1 34079 1qf9A 194 2.76e+01 1zin c.37.1.1 31848 1f52A 468 2.80e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1hm2A 700 2.85e+01 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.5.2 61085 1jkxA 212 2.85e+01 c.65.1.1 66813 1sqsA 242 3.00e+01 unknown_sccs -6433 3adk 195 3.01e+01 1zin c.37.1.1 31885 8acn 754 3.07e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1daaA 282 3.07e+01 1daaA e.17.1.1 43270 7acn 754 3.12e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1okiA 210 3.13e+01 b.11.1.1 -3030 b.11.1.1 -3031 1qtfA 246 3.14e+01 1agjA b.47.1.1 25830 1o6zA 303 3.19e+01 c.2.1.5 81107 d.162.1.1 81108 1n0uA 842 3.19e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1nmeA 146 3.24e+01 c.17.1.1 85874 1ip9A 85 3.27e+01 1ip9A d.15.2.2 62638 1o12A 376 3.37e+01 b.92.1.5 80758 c.1.9.10 80759 1ukgA 252 3.46e+01 b.29.1.1 -3390 6acn 754 3.50e+01 1amj c.8.2.1 30721 c.83.1.1 35397 3daaA 277 3.54e+01 1daaA e.17.1.1 43272 1ay7B 89 3.54e+01 1ay7B c.9.1.1 30836 1n3oA 252 3.66e+01 b.29.1.1 79967 2bb2 181 3.72e+01 2bb2 b.11.1.1 23604 b.11.1.1 23605 1s6tA 285 3.75e+01 c.37.1.5 -7040 1vkjA 285 3.75e+01 6ldh 330 3.77e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1ky9B 448 3.79e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1ctj 89 3.86e+01 1ctj a.3.1.1 15798 1to6A 371 3.86e+01 1qhtA 775 3.97e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011